VISDB Viral Integration Site DataBase

VIS ID

TVIS10007958

Fusion event

HBV-LIFR integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

S protein|Polymerase|large S protein|middle S protein|

Start

312

Orient

+

Integrated sequence

TTTCTTGTTGACAAGAATCCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAAT| |TCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCA

Chromosome

chr5

Cytoband

p13.1

Reference genome

Start

End

38576265/38576163 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-128-3p ; hsa-mir-1-3p ; hsa-mir-101-3p ; hsa-mir-98-5p ; hsa-mir-27a-3p ; hsa-mir-21-5p ; hsa-mir-1296-5p ; hsa-mir-203a-3p ; hsa-mir-125a-5p ; hsa-mir-511-3p ; hsa-mir-6864-5p ; hsa-mir-6126 ; hsa-mir-526b-5p ; hsa-mir-331-5p ; hsa-mir-103a-2-5p ; hsa-mir-493-3p ; hsa-mir-4635 ; hsa-mir-5697 ; hsa-mir-4678 ; hsa-mir-3614-3p ; hsa-mir-499a-3p ; hsa-mir-3927-5p ; hsa-mir-451b ; hsa-mir-3120-3p ; hsa-mir-4785 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-1252-3p ; hsa-mir-3692-3p ; hsa-mir-340-5p ; hsa-mir-5003-3p ; hsa-mir-212-3p ; hsa-mir-132-3p ; hsa-mir-6083 ; hsa-mir-513a-5p ; hsa-mir-223-5p ; hsa-mir-26b-3p ; hsa-mir-4760-3p ; hsa-mir-27b-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-144-3p ; hsa-mir-30c-5p ; hsa-mir-30a-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-3658 ; hsa-mir-3653-3p ; hsa-mir-4804-5p ; hsa-mir-184 ; hsa-mir-4304 ; hsa-mir-8060 ; hsa-mir-125b-5p

Nearest miRNA

hsa-mir-10397/Upstream/18602; hsa-mir-103a-1/Downstream/15375341;

Nearest TSS

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/18702, chr5-CpG: 92/Downstream/269237

Nearest cancer related gene

LIFR(TSG, No orient, 0)

Upstream sequence

atgaaattactgtaattaataaacatttaggttacttttaacatttggccctttatgagttatgctgctataaacatgtttgtgcatgtctgttggcaaa

Downstream sequence

ATTTAAAGTTGTGAacctcaaaaaccaccttgctggtctaagtcactatcatctcttgtctgttattgcaataatctgctaacagtcctctctgcttcct